Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8646418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 43
Found at i:2077460 original size:12 final size:12
Alignment explanation
Indices: 2077440--2077473 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
2077430 TTATGTTTAA
*
2077440 TTATATATATAT
1 TTATATATATAC
*
2077452 TTATGTATATAC
1 TTATATATATAC
2077464 TTATATATAT
1 TTATATATAT
2077474 TATTCAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (12 bp):
TTATATATATAC
Found at i:2077642 original size:20 final size:19
Alignment explanation
Indices: 2077582--2077645 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
2077572 TTGATAATAT
2077582 AGGGAAATTGGGAATTTAG
1 AGGGAAATTGGGAATTTAG
*
2077601 AGGGAAATTGGGAATTTCG
1 AGGGAAATTGGGAATTTAG
*
2077620 AGGGAAATTGAGAAATTTAG
1 AGGGAAATTG-GGAATTTAG
2077640 AGGGAA
1 AGGGAA
2077646 TAGAAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 28 0.68
20 13 0.32
ACGTcount: A:0.39, C:0.02, G:0.36, T:0.23
Consensus pattern (19 bp):
AGGGAAATTGGGAATTTAG
Found at i:2077655 original size:38 final size:38
Alignment explanation
Indices: 2077582--2077655 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
2077572 TTGATAATAT
* * **
2077582 AGGGAAATTGGGAATTTAGAGGGAAATTGGGAATTTCG
1 AGGGAAATTGGAAATTTAGAGGGAAATAGAAAATTTCG
2077620 AGGGAAATTGAGAAATTTAGAGGG-AATAGAAAATTT
1 AGGGAAATTG-GAAATTTAGAGGGAAATAGAAAATTT
2077656 GGGAAGTTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 19 0.61
39 12 0.39
ACGTcount: A:0.41, C:0.01, G:0.32, T:0.26
Consensus pattern (38 bp):
AGGGAAATTGGAAATTTAGAGGGAAATAGAAAATTTCG
Found at i:2078096 original size:19 final size:19
Alignment explanation
Indices: 2078072--2078110 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2078062 TCGAATGCAT
2078072 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
2078091 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
2078110 T
1 T
2078111 GAATTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:2078127 original size:65 final size:63
Alignment explanation
Indices: 2078009--2078217 Score: 215
Period size: 65 Copynumber: 3.2 Consensus size: 63
2077999 TATTCAAAGG
** *
2078009 CATGCACCGATGCA-TCAGTCCATGCATCGATGCATCGATGAATTAATT-GAACATCGAATGCAT
1 CATGCACCGATGCACTC--TCCATGCATCGATGCATC--TGAATTTTTTCAAACATCGAATGCAT
*
2078072 TC
62 TT
2078074 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATTTTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCA-TCTGAATTTTTTC-AAACATCGAATGCATTT
* * *** * ** *
2078139 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTCTCAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCATCTGAAT-TTTTTCAAACATCGAATGCATTT
*
2078203 CATGCATCGATGCAC
1 CATGCACCGATGCAC
2078218 ACTTGGTGCA
Statistics
Matches: 125, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
63 8 0.06
64 51 0.41
65 64 0.51
66 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (63 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCATCTGAATTTTTTCAAACATCGAATGCATTT
Found at i:2078233 original size:64 final size:64
Alignment explanation
Indices: 2078009--2078238 Score: 216
Period size: 64 Copynumber: 3.6 Consensus size: 64
2077999 TATTCAAAGG
* * * *
2078009 CATGCACCGATGCATCAGTCCATGCATCGATGCATCGATGAATTAAT-T--GAACATCGAATGCA
1 CATGCATCGATGCA-CACTCCATGCATCGATGCATC-A-GAATT-TTCTCAAAACATCGAATGCA
*
2078071 TTC
62 TTT
* * * *
2078074 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATTTTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATTTTCTCAAAACATCGAATGCATTT
* ** **
2078139 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTCTC-AAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCATCAGAAT-TTTCTCAAAACATCGAATGCATTT
*** *
2078203 CATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 CATGCATCGATGCACACTCCATGCATCGATGCATCA
2078239 AGTGTTCCAA
Statistics
Matches: 138, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
62 1 0.01
63 6 0.04
64 67 0.49
65 64 0.46
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (64 bp):
CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATTTTCTCAAAACATCGAATGCATTT
Found at i:2085531 original size:18 final size:19
Alignment explanation
Indices: 2085487--2085536 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
2085477 ATTAATTGAA
2085487 CATCGAATGCA-T-TCCATG
1 CATCG-ATGCACTCTCCATG
*
2085505 CACCGATGCACTCTCCA-G
1 CATCGATGCACTCTCCATG
2085523 CATCGATGCACTCT
1 CATCGATGCACTCT
2085537 GATTTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.18
18 19 0.68
19 4 0.14
ACGTcount: A:0.24, C:0.36, G:0.16, T:0.24
Consensus pattern (19 bp):
CATCGATGCACTCTCCATG
Found at i:2085552 original size:63 final size:64
Alignment explanation
Indices: 2085436--2085643 Score: 201
Period size: 64 Copynumber: 3.2 Consensus size: 64
2085426 TATTCAAAGG
* * ** **
2085436 CATGCACCGATGCATC-AGTCCATGCATCGATGCATCGATGA-ATTAATTGAACATCGAATGCAT
1 CATGCATCGATGCA-CAAG-CCATGCATCGATGCATC-AGGATATTTCTCAAACATCGAATGCAT
*
2085499 TC
63 TT
* *** * *
2085501 CATGCACCGATGCACTCTCCA-GCATCGATGCACTC-TGAT-TTTTTCAAAACATCGAATGCATT
1 CATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGATATTTCTC-AAACATCGAATGCATT
2085563 T
64 T
* *
2085564 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTCTCAAACATCGAATGCATTT
1 CATGCATCGATGCACAAGCCATGCATCGATGCATCAGGATATTTCTCAAACATCGAATGCATTT
2085628 CATGCATCGATGCACA
1 CATGCATCGATGCACA
2085644 CTTGGTGCAC
Statistics
Matches: 120, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
62 6 0.05
63 44 0.37
64 51 0.43
65 19 0.16
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCATCGATGCACAAGCCATGCATCGATGCATCAGGATATTTCTCAAACATCGAATGCATTT
Found at i:2086489 original size:7 final size:7
Alignment explanation
Indices: 2086479--2086565 Score: 61
Period size: 7 Copynumber: 12.4 Consensus size: 7
2086469 ATAGTTTATA
*
2086479 TAAACCT
1 TAAACCC
2086486 TAAACCC
1 TAAACCC
* *
2086493 TAAATCA
1 TAAACCC
2086500 TAAACCC
1 TAAACCC
*
2086507 TAAAACCA
1 T-AAACCC
*
2086515 TAATA--A
1 TAA-ACCC
*
2086521 TAAACCA
1 TAAACCC
*
2086528 TAAACCA
1 TAAACCC
**
2086535 TAAATAC
1 TAAACCC
2086542 TAAACCC
1 TAAACCC
2086549 TAAACCC
1 TAAACCC
2086556 TAAACCC
1 TAAACCC
2086563 TAA
1 TAA
2086566 TGTATGTATA
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
5 1 0.02
6 4 0.06
7 53 0.82
8 7 0.11
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:2086503 original size:14 final size:14
Alignment explanation
Indices: 2086479--2086565 Score: 72
Period size: 14 Copynumber: 6.2 Consensus size: 14
2086469 ATAGTTTATA
*
2086479 TAAACCTTAAACCC
1 TAAACCATAAACCC
*
2086493 TAAATCATAAACCC
1 TAAACCATAAACCC
*
2086507 TAAAACCATAATA--A
1 T-AAACCATAA-ACCC
*
2086521 TAAACCATAAACCA
1 TAAACCATAAACCC
*
2086535 TAAA-TACTAAACCC
1 TAAACCA-TAAACCC
*
2086549 TAAACCCTAAACCC
1 TAAACCATAAACCC
2086563 TAA
1 TAA
2086566 TGTATGTATA
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
12 1 0.02
13 10 0.17
14 39 0.66
15 8 0.14
16 1 0.02
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:2086504 original size:21 final size:20
Alignment explanation
Indices: 2086476--2086559 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 20
2086466 TATATAGTTT
*
2086476 ATATAAACCTTAAACCCTAA
1 ATATAAACCCTAAACCCTAA
*
2086496 ATCATAAACCCTAAAACC-ATA
1 AT-ATAAACCCTAAACCCTA-A
* *
2086517 ATAATAAACCATAAACCATAA
1 AT-ATAAACCCTAAACCCTAA
2086538 ATACTAAACCCTAAACCCTAA
1 ATA-TAAACCCTAAACCCTAA
2086559 A
1 A
2086560 CCCTAATGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 4 0.08
21 47 0.90
22 1 0.02
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (20 bp):
ATATAAACCCTAAACCCTAA
Found at i:2086606 original size:20 final size:21
Alignment explanation
Indices: 2086572--2086637 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 21
2086562 CTAATGTATG
* *
2086572 TATAAACCATGTATAATA-TA
1 TATAAACTATATATAATACTA
2086592 TATAAACTATATAT-ATACCTA
1 TATAAACTATATATAATA-CTA
*
2086613 TAT-ATCTATATATAA-ACTA
1 TATAAACTATATATAATACTA
2086632 TATAAA
1 TATAAA
2086638 GTAAATTACT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 9 0.24
20 23 0.61
21 6 0.16
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.38
Consensus pattern (21 bp):
TATAAACTATATATAATACTA
Found at i:2086827 original size:11 final size:11
Alignment explanation
Indices: 2086811--2086839 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
2086801 TAGTTTATAC
2086811 ATATATAGTTT
1 ATATATAGTTT
2086822 ATATATAGTTT
1 ATATATAGTTT
2086833 ATATATA
1 ATATATA
2086840 TAATTCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (11 bp):
ATATATAGTTT
Found at i:2086903 original size:18 final size:18
Alignment explanation
Indices: 2086864--2086996 Score: 74
Period size: 18 Copynumber: 7.0 Consensus size: 18
2086854 ATAATTTTAT
* *
2086864 ATATAGCTTATAATA-ATT
1 ATATAGTTTATAATATA-A
2086882 ATATAGTTTATAATATAA
1 ATATAGTTTATAATATAA
*
2086900 ATATAGTTTATAATTTTATAT
1 ATATAGTTTATAA---TATAA
* *
2086921 ACATAGTTTATATATATAGTTC
1 ATATAGTTTATA-ATATA---A
* ** *
2086943 ACATA-AATATAATTTATAT
1 ATATAGTTTATAA--TATAA
2086962 ATATAGTTTATAATATAA
1 ATATAGTTTATAATATAA
2086980 ATATAGTTTAT-ATATAA
1 ATATAGTTTATAATATAA
2086997 TTTTATTATA
Statistics
Matches: 92, Mismatches: 12, Indels: 23
0.72 0.09 0.18
Matches are distributed among these distances:
17 6 0.07
18 42 0.46
19 9 0.10
20 6 0.07
21 19 0.21
22 10 0.11
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (18 bp):
ATATAGTTTATAATATAA
Found at i:2086930 original size:13 final size:13
Alignment explanation
Indices: 2086914--2087019 Score: 74
Period size: 13 Copynumber: 7.8 Consensus size: 13
2086904 AGTTTATAAT
*
2086914 TTTATATACATAG
1 TTTATATATATAG
2086927 TTTATATATATAG
1 TTTATATATATAG
* * *
2086940 TTCACATAAATATAA
1 TT--TATATATATAG
2086955 TTTATATATATAG
1 TTTATATATATAG
2086968 TTTATAATATAAATATAG
1 -TT-T-ATAT--ATATAG
*
2086986 TTTATATATA-AT
1 TTTATATATATAG
2086998 TTTAT-TATATA-
1 TTTATATATATAG
*
2087009 TATATATATAT
1 TTTATATATAT
2087020 TATATTTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
11 8 0.11
12 12 0.16
13 25 0.33
14 2 0.03
15 15 0.20
16 5 0.07
17 2 0.03
18 6 0.08
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (13 bp):
TTTATATATATAG
Found at i:2086932 original size:97 final size:97
Alignment explanation
Indices: 2086821--2086996 Score: 275
Period size: 97 Copynumber: 1.8 Consensus size: 97
2086811 ATATATAGTT
* *
2086821 TATATATAGTTTATATATATAATTCACATAAACATAATTT-TATATATAGCTTATAATA-ATTAT
1 TATACATAGTTTATATATATAATTCACATAAACATAATTTATATATATAGCTTATAATATA-AAT
2086884 ATAGTTTATAATATAAATATAGTTTATAATTTTA
65 ATAGTTTAT-ATATAAATATAGTTTATAATTTTA
* * *
2086918 TATACATAGTTTATATATATAGTTCACATAAATATAATTTATATATATAGTTTATAATATAAATA
1 TATACATAGTTTATATATATAATTCACATAAACATAATTTATATATATAGCTTATAATATAAATA
2086983 TAGTTTATATATAA
66 TAGTTTATATATAA
2086997 TTTTATTATA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
97 43 0.60
98 28 0.39
99 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (97 bp):
TATACATAGTTTATATATATAATTCACATAAACATAATTTATATATATAGCTTATAATATAAATA
TAGTTTATATATAAATATAGTTTATAATTTTA
Found at i:2087020 original size:17 final size:17
Alignment explanation
Indices: 2086957--2087024 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 17
2086947 AAATATAATT
2086957 TATATATATAGT-TTATA
1 TATATATATA-TATTATA
*
2086974 -ATATAAATATAGTT-TA
1 TATATATATATA-TTATA
*
2086990 TATATA-ATTTTATTATA
1 TATATATA-TATATTATA
2087007 TATATATATATATTATA
1 TATATATATATATTATA
2087024 T
1 T
2087025 TTTTTTCAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
15 1 0.02
16 13 0.31
17 27 0.64
18 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TATATATATATATTATA
Found at i:2087023 original size:13 final size:13
Alignment explanation
Indices: 2086757--2087024 Score: 64
Period size: 13 Copynumber: 20.0 Consensus size: 13
2086747 TAATGCATAC
*
2086757 ATATATACTATAT
1 ATATATATTATAT
2086770 ATATA-ATTATA-
1 ATATATATTATAT
* *
2086781 ACATATAACTATAT
1 ATATAT-ATTATAT
*
2086795 ATTATATAGTTTATAC
1 A-TATATA--TTATAT
2086811 ATATATAGTT-TAT
1 ATATATA-TTATAT
2086824 ATATAGT-TTATAT
1 ATATA-TATTATAT
*
2086837 ATATA-ATTCACAT
1 ATATATATT-ATAT
* * *
2086850 AAACATAATTTTAT
1 ATATAT-ATTATAT
**
2086864 ATATAGCTTATAAT
1 ATATATATTAT-AT
2086878 AATTATATAGTT-TAT
1 -A-TATATA-TTATAT
*
2086893 A-ATATA-AATAT
1 ATATATATTATAT
* *
2086904 AGTTTATAATTTTAT
1 A-TATAT-ATTATAT
*
2086919 ATACATAGTT-TAT
1 ATATATA-TTATAT
*
2086932 ATATATAGTTCACAT
1 ATATATA-TT-ATAT
*
2086947 AAATATAATT-TAT
1 ATATAT-ATTATAT
2086960 ATATATAGTTTATAAT
1 ATATATA--TTAT-AT
2086976 ATAAATATAGTT-TAT
1 AT--ATATA-TTATAT
2086991 ATATA-ATT-T-T
1 ATATATATTATAT
2087001 AT-TATA-TATAT
1 ATATATATTATAT
2087012 ATATATATTATAT
1 ATATATATTATAT
2087025 TTTTTTCAAT
Statistics
Matches: 187, Mismatches: 32, Indels: 72
0.64 0.11 0.25
Matches are distributed among these distances:
9 3 0.02
10 5 0.03
11 14 0.07
12 20 0.11
13 65 0.35
14 21 0.11
15 34 0.18
16 16 0.09
17 4 0.02
18 5 0.03
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (13 bp):
ATATATATTATAT
Found at i:2087958 original size:19 final size:20
Alignment explanation
Indices: 2087918--2087958 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
2087908 ATGTGTGTTG
*
2087918 TTTATTTTATATTTTAAGAT
1 TTTATTTTATATTTTAACAT
2087938 TTTA-TTTATAATTTT-ACAT
1 TTTATTTTAT-ATTTTAACAT
2087957 TT
1 TT
2087959 CTTCAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTATTTTATATTTTAACAT
Found at i:2090472 original size:20 final size:20
Alignment explanation
Indices: 2090447--2090497 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
2090437 TTCTGAAAAT
2090447 ACGATTTCGTCCGTAATATA
1 ACGATTTCGTCCGTAATATA
2090467 ACGATTTCGTCCGTAATATA
1 ACGATTTCGTCCGTAATATA
2090487 ACGATTTCGTC
1 ACGATTTCGTC
2090498 GTCATCCGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (20 bp):
ACGATTTCGTCCGTAATATA
Found at i:2093968 original size:24 final size:20
Alignment explanation
Indices: 2093941--2093998 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
2093931 GCATGGATAG
2093941 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
2093965 TGCATCGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
2093985 TGTATCGATGCACT
1 TGCATCGATGCACT
2093999 TCAATGGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:2094917 original size:18 final size:18
Alignment explanation
Indices: 2094894--2094982 Score: 144
Period size: 18 Copynumber: 4.9 Consensus size: 18
2094884 GTTCTTAAGA
*
2094894 AGTGGTCTTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
2094912 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
*
2094930 AGTGGTCCTACGGGACAC
1 AGTGGTCCTTCGGGACAC
2094948 AGTGGTCCTTCGGGACAC
1 AGTGGTCCTTCGGGACAC
2094966 AGTGGT-CTTACGGGACA
1 AGTGGTCCTT-CGGGACA
2094983 AATTCTACGC
Statistics
Matches: 67, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
17 3 0.04
18 64 0.96
ACGTcount: A:0.19, C:0.25, G:0.34, T:0.22
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAC
Found at i:2094934 original size:36 final size:36
Alignment explanation
Indices: 2094894--2094982 Score: 160
Period size: 36 Copynumber: 2.5 Consensus size: 36
2094884 GTTCTTAAGA
*
2094894 AGTGGTCTTTCGGGACACAGTGGTCCTTCGGGACAC
1 AGTGGTCTTACGGGACACAGTGGTCCTTCGGGACAC
*
2094930 AGTGGTCCTACGGGACACAGTGGTCCTTCGGGACAC
1 AGTGGTCTTACGGGACACAGTGGTCCTTCGGGACAC
2094966 AGTGGTCTTACGGGACA
1 AGTGGTCTTACGGGACA
2094983 AATTCTACGC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.19, C:0.25, G:0.34, T:0.22
Consensus pattern (36 bp):
AGTGGTCTTACGGGACACAGTGGTCCTTCGGGACAC
Found at i:2096815 original size:131 final size:131
Alignment explanation
Indices: 2096596--2096962 Score: 479
Period size: 131 Copynumber: 2.8 Consensus size: 131
2096586 ATTTTAAGAA
* * * * *
2096596 AGAAAACGATAATATCTAATGATTTCCAATCAAGAATAAATGATCTCTCATGCCTTAAAGCAGTC
1 AGAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTTTCATGCCTTAAAGCAATC
* * * * *
2096661 ATTTATTACTCTAATCAAAATGAAGAGTTATCACTATTTTGTCTTAAAATTAAATATTGATTCGA
66 ATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTTATCTTAAAAATAAATATTGATTCGA
2096726 G
131 G
* *
2096727 TGAAAATGATAATATCTAACGATTTCCAATCGAGAATAAATGACCTTTCATGCCTTAAAGCAATC
1 AGAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTTTCATGCCTTAAAGCAATC
* * ** *
2096792 ATTTATTACTCCAATCGAAATGAAGAGACATCATTATTCCATCTTAAAAATCAATATTGATTCGA
66 ATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTTATCTTAAAAATAAATATTGATTCGA
2096857 G
131 G
* * * *
2096858 AGAAAATGATAATATATAATTATTTCCCATTGAGAATAAATGATCAC-TT-ATGCCTTAAAGCAA
1 AGAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGA-C-CTTTCATGCCTTAAAGCAA
* *
2096921 TCATTTATTACTCCAACCGAAAT-AAGAAGATATTACTATTTT
64 TCATTTATTACTCCAATCGAAATGAAG-AGATATCACTATTTT
2096963 CAACATCGAA
Statistics
Matches: 204, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
130 3 0.01
131 197 0.97
132 3 0.01
133 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (131 bp):
AGAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTTTCATGCCTTAAAGCAATC
ATTTATTACTCCAATCGAAATGAAGAGATATCACTATTTTATCTTAAAAATAAATATTGATTCGA
G
Found at i:2097592 original size:28 final size:26
Alignment explanation
Indices: 2097560--2097628 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 26
2097550 TCAAAGGGTA
2097560 AAAATAAATAAAA-CATGGAGACCAAATT
1 AAAATAAATAAAATCATGGA-A--AAATT
2097588 AAAATAAAATAAAATTGCATGGAAAAATT
1 AAAAT-AAATAAAA-T-CATGGAAAAATT
2097617 AAAATAAATAAA
1 AAAATAAATAAA
2097629 TAAACATATT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
28 12 0.32
29 18 0.49
31 1 0.03
32 6 0.16
ACGTcount: A:0.65, C:0.06, G:0.09, T:0.20
Consensus pattern (26 bp):
AAAATAAATAAAATCATGGAAAAATT
Found at i:2097931 original size:106 final size:106
Alignment explanation
Indices: 2097803--2098015 Score: 281
Period size: 106 Copynumber: 2.0 Consensus size: 106
2097793 TAAAAATACG
* * *
2097803 CTAAACTATGGGACTAAACAACAAATATCCCATAAATTATA-AAGCATGCATAA-AAA-GGGTAA
1 CTAAACTATGGGACTAAACAACAAATATCCCAAAAAATATATAA-CATGCATAAGAAATAGGTAA
2097865 ATAGCA-AATTCAGTCCTTACAGGTGACCAACATGCAAAACACA
65 ATAGCAGAA-TCAGTCCTTACAGGTGACCAACATGCAAAA-ACA
* *
2097908 CTAAACTATGGGGACTAAGCAACAATTATCCCAAAAAATATATAACATGCATAAGAAATAGGTAA
1 CTAAACTAT-GGGACTAAACAACAAATATCCCAAAAAATATATAACATGCATAAGAAATAGGTAA
* * * *
2097973 ATATCAGAATCAGTCCTTACATGTGACTAACATTCAAAAACA
65 ATAGCAGAATCAGTCCTTACAGGTGACCAACATGCAAAAACA
2098015 C
1 C
2098016 GCGAGAGTTA
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
105 9 0.10
106 37 0.39
107 9 0.10
108 37 0.39
109 2 0.02
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (106 bp):
CTAAACTATGGGACTAAACAACAAATATCCCAAAAAATATATAACATGCATAAGAAATAGGTAAA
TAGCAGAATCAGTCCTTACAGGTGACCAACATGCAAAAACA
Found at i:2099592 original size:21 final size:20
Alignment explanation
Indices: 2099506--2099662 Score: 93
Period size: 20 Copynumber: 7.8 Consensus size: 20
2099496 AAATGACCAA
**
2099506 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
2099525 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
2099545 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
2099565 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
2099586 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
2099606 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
2099626 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
2099647 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
2099663 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 9
0.73 0.20 0.06
Matches are distributed among these distances:
19 16 0.15
20 56 0.54
21 32 0.31
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:2099615 original size:41 final size:41
Alignment explanation
Indices: 2099506--2099662 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
2099496 AAATGACCAA
* **
2099506 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
2099545 CAGAATCGCAAATC-AGTTTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
2099586 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
2099627 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
2099663 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:2099672 original size:20 final size:20
Alignment explanation
Indices: 2099649--2099822 Score: 118
Period size: 20 Copynumber: 8.7 Consensus size: 20
2099639 GCGAATATGA
2099649 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
2099669 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
2099689 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
****
2099709 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTAACCAT
* * *
2099729 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * **
2099749 ATATCGCAACGCGTATCGGT
1 AAATCGCAACGCGTAACCAT
* *
2099769 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGTAA-CCAT
* *
2099789 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTAACCAT
2099810 AAATCGCAACGCG
1 AAATCGCAACGCG
2099823 ATATTTAAAG
Statistics
Matches: 126, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
19 2 0.02
20 107 0.85
21 15 0.12
22 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:2099693 original size:40 final size:39
Alignment explanation
Indices: 2099629--2099823 Score: 183
Period size: 40 Copynumber: 4.9 Consensus size: 39
2099619 CGATTTTCCA
* ** *
2099629 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CAT
* * * *
2099669 AAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
** * * *
2099709 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
* * ** *
2099749 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT
2099789 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
2099824 TATTTAAAGC
Statistics
Matches: 127, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.74
41 32 0.25
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (39 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACCAT
Found at i:2099714 original size:60 final size:60
Alignment explanation
Indices: 2099629--2099822 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
2099619 CGATTTTCCA
* ** * *
2099629 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ***
2099689 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ** *
2099749 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAATGCGTATCCGT
2099810 AAATCGCAACGCG
1 AAATCGCAACGCG
2099823 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
Found at i:2100222 original size:33 final size:33
Alignment explanation
Indices: 2100183--2100253 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2100173 TTCACTTAGA
2100183 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
2100216 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
2100249 TTTCA
1 TTTCA
2100254 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:2100390 original size:41 final size:41
Alignment explanation
Indices: 2100332--2100409 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
2100322 TTGCAGAAGA
*
2100332 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
2100373 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
2100410 CGCAAAGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:2100406 original size:21 final size:21
Alignment explanation
Indices: 2100333--2100408 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
2100323 TGCAGAAGAG
*
2100333 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
2100354 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
2100374 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
2100395 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
2100409 TCGCAAAGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:2100412 original size:14 final size:14
Alignment explanation
Indices: 2100393--2100449 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2100383 GAGAAATGAA
2100393 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
2100407 AATCGCAAAGCGATATGAA
1 AATCGC-AA-CG--A-GAG
2100426 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2100440 AATCGCAACG
1 AATCGCAACG
2100450 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
15 3 0.08
16 2 0.06
17 2 0.06
18 3 0.08
19 8 0.22
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2100426 original size:33 final size:33
Alignment explanation
Indices: 2100388--2100452 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
2100378 AACGAGAGAA
2100388 ATGAAAATCGCAACGAGAGAATCGCAAAGCGAT
1 ATGAAAATCGCAACGAGAGAATCGCAAAGCGAT
*
2100421 ATGAAAATCGCAACGAGAGAATCGCAACGCGA
1 ATGAAAATCGCAACGAGAGAATCGCAAAGCGA
2100453 AACCAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.45, C:0.20, G:0.25, T:0.11
Consensus pattern (33 bp):
ATGAAAATCGCAACGAGAGAATCGCAAAGCGAT
Found at i:2100461 original size:33 final size:33
Alignment explanation
Indices: 2100391--2100465 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
2100381 GAGAGAAATG
* **
2100391 AAAATCGCAACGAGAGAATCGCAAAGCGATATG
1 AAAATCGCAACGAGAGAATCGCAAAGCGAAACC
*
2100424 AAAATCGCAACGAGAGAATCGCAACGCGAAACC
1 AAAATCGCAACGAGAGAATCGCAAAGCGAAACC
2100457 AAAATCGCA
1 AAAATCGCA
2100466 TTGCGATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.47, C:0.23, G:0.21, T:0.09
Consensus pattern (33 bp):
AAAATCGCAACGAGAGAATCGCAAAGCGAAACC
Found at i:2100483 original size:19 final size:19
Alignment explanation
Indices: 2100461--2100558 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
2100451 GAAACCAAAA
*
2100461 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2100480 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2100494 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2100513 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
2100527 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
2100546 TCGCGTTGCGATT
1 TCGCGTTGCGATT
2100559 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2100502 original size:14 final size:14
Alignment explanation
Indices: 2100483--2100572 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
2100473 TTTCATTTCG
2100483 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2100497 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2100516 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2100530 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
2100549 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2100563 CGTTGCGATT
1 CGTTGCGATT
2100573 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2100508 original size:33 final size:33
Alignment explanation
Indices: 2100466--2100580 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
2100456 CAAAATCGCA
2100466 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2100499 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
2100532 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
2100565 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
2100581 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:2102507 original size:185 final size:184
Alignment explanation
Indices: 2102277--2102650 Score: 721
Period size: 185 Copynumber: 2.0 Consensus size: 184
2102267 TAGATTGCTT
2102277 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2102342 TTTGTCTTTGTTTTGTCTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
66 TTTGTCTTTGTTTTGTCTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
*
2102407 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTAGTTG-A
*
2102462 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2102527 TTTGTCTTTGTTTTGTCTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
66 TTTGTCTTTGTTTTGTCTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
2102592 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTAGTTGA
131 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTAGTTGA
2102646 AGTAA
1 AGTAA
2102651 TGCAATCCAT
Statistics
Matches: 187, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
184 6 0.03
185 181 0.97
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (184 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTAGTTGA
Found at i:2102650 original size:92 final size:92
Alignment explanation
Indices: 2102277--2102638 Score: 706
Period size: 92 Copynumber: 3.9 Consensus size: 92
2102267 TAGATTGCTT
*
2102277 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2102342 TTTGTCTTTGTTTTGTCTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTGGTTGAA
2102369 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2102434 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
2102462 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2102527 TTTGTCTTTGTTTTGTCTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTGGTTGAA
2102554 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
2102619 TTTGTCTTTGTTTTGTCTTT
66 TTTGTCTTTGTTTTGTCTTT
2102639 TAGTTGAAGT
Statistics
Matches: 268, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 176 0.66
93 92 0.34
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (92 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTGGTTGAA
Found at i:2102738 original size:19 final size:19
Alignment explanation
Indices: 2102698--2102826 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2102688 TAGTTTACTT
* *
2102698 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
2102718 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
2102737 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
2102756 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
2102770 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
2102789 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
2102803 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
2102822 TCGCA
1 TCGCA
2102827 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:2102777 original size:33 final size:32
Alignment explanation
Indices: 2102734--2102826 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
2102724 CGCGAAACCA
**
2102734 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
2102766 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
2102799 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
2102827 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:2102824 original size:52 final size:52
Alignment explanation
Indices: 2102698--2102826 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
2102688 TAGTTTACTT
**
2102698 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
2102750 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
2102803 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
2102827 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:2102844 original size:19 final size:19
Alignment explanation
Indices: 2102822--2102942 Score: 135
Period size: 19 Copynumber: 6.6 Consensus size: 19
2102812 GAAACCAAAA
*
2102822 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2102841 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
2102860 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
2102876 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
2102893 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
2102912 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
2102932 TCGTGTTGCGA
1 TCGCGTTGCGA
2102943 AAGTAAACTA
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
14 7 0.08
16 5 0.06
17 5 0.06
19 57 0.66
20 12 0.14
ACGTcount: A:0.12, C:0.19, G:0.24, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2104882 original size:14 final size:14
Alignment explanation
Indices: 2104863--2104898 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2104853 ATTGTTTAAT
2104863 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
2104877 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
2104891 TGATTTGT
1 TGATTTGT
2104899 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:2105021 original size:19 final size:19
Alignment explanation
Indices: 2105005--2105102 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
2104995 AAAAATGACT
2105005 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2105024 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2105043 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2105057 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2105076 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
2105096 ATCGCAA
1 ATCGCAA
2105103 CGAGAGAACC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2105083 original size:52 final size:53
Alignment explanation
Indices: 2105005--2105120 Score: 216
Period size: 53 Copynumber: 2.2 Consensus size: 53
2104995 AAAAATGACT
2105005 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
2105057 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
2105110 ACCGCAATGCG
1 ATCGCAATGCG
2105121 TTTATAATTT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.47
53 33 0.53
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:2105164 original size:33 final size:33
Alignment explanation
Indices: 2105127--2105450 Score: 227
Period size: 33 Copynumber: 9.5 Consensus size: 33
2105117 TGCGTTTATA
2105127 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
2105160 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * *
2105200 GTTGCG-ATTTTC-ATT-TC-CGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCG--TTGCGATTTTC
2105232 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
2105265 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
2105305 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
* * * * *
2105336 ATGTTGGGATTTTC-ATT-TCGCATTGCGATTTTC
1 AT-TTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
2105369 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
2105402 ATTTCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTTCGCATTGCGATTCTC-TCGTTGCGATTTTC
*
2105435 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
2105451 GTAATTTCCG
Statistics
Matches: 240, Mismatches: 26, Indels: 50
0.76 0.08 0.16
Matches are distributed among these distances:
31 6 0.03
32 19 0.08
33 137 0.57
34 15 0.06
35 11 0.05
36 8 0.03
37 4 0.02
38 16 0.07
39 6 0.03
40 18 0.08
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:2105422 original size:52 final size:52
Alignment explanation
Indices: 2105127--2105384 Score: 430
Period size: 52 Copynumber: 4.9 Consensus size: 52
2105117 TGCGTTTATA
2105127 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
2105179 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
2105232 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
2105284 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* * * * *
2105336 ATGTTGGGATTTTC-ATT-TCGCATTGCGATTTTCATTTCGCATTGCGATT
1 AT-TTCGCA-TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
2105385 CTCTCGTTGC
Statistics
Matches: 198, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
52 136 0.69
53 59 0.30
54 3 0.02
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:2105450 original size:52 final size:52
Alignment explanation
Indices: 2105149--2105422 Score: 200
Period size: 52 Copynumber: 5.2 Consensus size: 52
2105139 GATTCTCTCG
* *
2105149 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC---TCGCGTTGCGATTTTCATTTCGCA
* *
2105201 TTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTT-CGCATTGCGA--TTC---TCGCGTTGCGATTTTCATTTCGCA
* *
2105254 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC---TCGCGTTGCGATTTTCATTTCGCA
* ** *
2105306 TTGCGATTTTCATTTCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCGCA
*
2105358 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCGCA
2105410 TTGCGATTTTCAT
1 TTGCGATTTTCAT
2105423 GTTGGGATTT
Statistics
Matches: 206, Mismatches: 10, Indels: 12
0.90 0.04 0.05
Matches are distributed among these distances:
47 7 0.03
49 3 0.01
50 6 0.03
52 138 0.67
53 52 0.25
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCGCGTTGCGATTTTCATTTCGCA
Found at i:2105458 original size:52 final size:52
Alignment explanation
Indices: 2105149--2105458 Score: 186
Period size: 52 Copynumber: 5.9 Consensus size: 52
2105139 GATTCTCTCG
* * * ** * *
2105149 TTGCGATTTTCATTTCGCATTGCGATT-T-TCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCGCGTTGCG-ATTGTAATT-TCGCA
* * * ** * *
2105201 TTGCGATTTTCATTTCCGCATTGCGATT-T-TCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTT-CGCATTGCGATTCTCGCGTTGCG-ATTGTAATT-TCGCA
* * * ** * *
2105254 TTGCGATTTTCATTTCGCATTGCGATT-T-TCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCGCGTTGCG-ATTGTAATT-TCGCA
* ** * * *
2105306 TTGCGATTTTCATTTCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCGCGTTGCGATTGTAATTTCGCA
* * *
2105358 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCGCGTTGCGATTGTAATTTCGCA
* * *
2105410 TTGCGATTTTCATGTTGGGATTTTC-ATT-TCGCGTTGCGATTGTAATTTC
1 TTGCGATTTTCAT-TTCGCA-TTGCGATTCTCGCGTTGCGATTGTAATTTC
2105459 CGTGTTGCGA
Statistics
Matches: 233, Mismatches: 20, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
52 161 0.69
53 66 0.28
54 6 0.03
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCGCGTTGCGATTGTAATTTCGCA
Found at i:2105458 original size:85 final size:85
Alignment explanation
Indices: 2105221--2105450 Score: 417
Period size: 85 Copynumber: 2.7 Consensus size: 85
2105211 CATTTCCGCA
* *
2105221 TTGCGATTTTCATTTCGCATTGCGATTCTC-TCGTTGCGATTTTCATTTCGCATTGCGATTTTCA
1 TTGCGATTTTCATTTCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCATTGCGATTTTCA
2105285 TTTCGCATTGCGATTCTCTCG
65 TTTCGCATTGCGATTCTCTCG
2105306 TTGCGATTTTCATTTCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGATTTTCAT
2105371 TTCGCATTGCGATTCTCTCG
66 TTCGCATTGCGATTCTCTCG
*
2105391 TTGCGATTTTCATTTCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGATT
2105451 GTAATTTCCG
Statistics
Matches: 141, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
85 140 0.99
86 1 0.01
ACGTcount: A:0.13, C:0.20, G:0.19, T:0.47
Consensus pattern (85 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATGTTGGGATTTTCATTTCGCATTGCGATTTTCAT
TTCGCATTGCGATTCTCTCG
Found at i:2107742 original size:12 final size:12
Alignment explanation
Indices: 2107725--2107749 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2107715 TCTTCGGGGA
2107725 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2107737 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2107749 C
1 C
2107750 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2107958 original size:24 final size:24
Alignment explanation
Indices: 2107924--2107970 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2107914 CTGAAACATC
2107924 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
2107948 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
2107971 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:2108680 original size:20 final size:20
Alignment explanation
Indices: 2108652--2108861 Score: 190
Period size: 20 Copynumber: 10.5 Consensus size: 20
2108642 AAATTTCAGT
* *
2108652 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
2108672 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
*
2108692 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCTC
*
2108712 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCTC
* *
2108732 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCTC
* ** *
2108752 GTTGCGATATACGGAAACGC
1 GTTGCGATTTACGGATTCTC
** *
2108772 GTTGCGATTTACCCATACGT-
1 GTTGCGATTTACGGATTC-TC
* *
2108792 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCTC
* *
2108812 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCTC
* ** *
2108832 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCTC
2108852 GTTGCGATTT
1 GTTGCGATTT
2108862 TCCAAAATCG
Statistics
Matches: 159, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
20 158 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCTC
Found at i:2108913 original size:21 final size:20
Alignment explanation
Indices: 2108828--2108924 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
2108818 ATTTATGTGT
* *
2108828 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCAAAA
2108848 TCGCGTTGCGATTTTCCAAAA
1 TCGCGTTGCGATTTT-CAAAA
*** * * **
2108869 TCGCAACGCGAATTTGACTA
1 TCGCGTTGCGATTTTCAAAA
*
2108889 TCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTTCAA-AA
2108910 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
2108925 GGAAACTGAT
Statistics
Matches: 59, Mismatches: 16, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
20 30 0.51
21 29 0.49
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCAAAA
Found at i:2109518 original size:37 final size:38
Alignment explanation
Indices: 2109457--2109528 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 38
2109447 CTTCATTCGT
*
2109457 TTTTTCTAGCTAAAAAACTACTTAT-GAGAAATTCCGC
1 TTTTTCTAACTAAAAAACTACTTATGGAGAAATTCCGC
* * *
2109494 TTTTTCTAACTAAGAAATTCCTTATGGAGAAATTC
1 TTTTTCTAACTAAAAAACTACTTATGGAGAAATTC
2109529 GAAAATTCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 21 0.70
38 9 0.30
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.38
Consensus pattern (38 bp):
TTTTTCTAACTAAAAAACTACTTATGGAGAAATTCCGC
Found at i:2115670 original size:2 final size:2
Alignment explanation
Indices: 2115663--2115698 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
2115653 AATAACAAAG
2115663 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2115699 TAAGATATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2119715 original size:41 final size:41
Alignment explanation
Indices: 2119659--2119998 Score: 360
Period size: 41 Copynumber: 8.2 Consensus size: 41
2119649 CAAAATGGTA
* * *
2119659 ACTTTAGTGGAGTTTTTATAAAAACGCCACTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * * *
2119700 ACTTCAGTGGCGTTTTTATACAAACGCCGCGATAGAGTAGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * * *
2119741 ACTTTAGCGGCGTTTTTATACAAATGCCACTATAGACTCCT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
*
2119782 ACTTTAGTGGCGTTTTTATACAAACGTCGCTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * * * * *
2119823 ACTTTAGTGGTGTTTGTGTTTACAAATGTCG-TAATAGGCTTGT
1 ACTTTAGTGGCGTTT-T-TATACAAACGCCGCT-ATAGACTCGT
* * * * *
2119866 ACTTTAGTGGCGTTTGTGTTTACAAATGCCGCAATAGGCTTGT
1 ACTTTAGTGGCGTTT-T-TATACAAACGCCGCTATAGACTCGT
* **
2119909 ACTTTAGTGGCGTTTTTGTACAAACGTTGCTATAGACTCGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
* * *
2119950 ACATTAGTGGCGTTTTTATACAAACGCCACTATAGACTTGT
1 ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
2119991 -CTTTAGTG
1 ACTTTAGTG
2119999 AGTTGCCTCT
Statistics
Matches: 253, Mismatches: 42, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
40 7 0.03
41 170 0.67
42 3 0.01
43 73 0.29
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (41 bp):
ACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGT
Found at i:2119868 original size:43 final size:43
Alignment explanation
Indices: 2119781--2119923 Score: 193
Period size: 43 Copynumber: 3.4 Consensus size: 43
2119771 TATAGACTCC
* * * *
2119781 TACTTTAGTGGCGTTT-T-TATACAAACGTCGCT-ATAGACTCG
1 TACTTTAGTGGCGTTTGTGTTTACAAATGTCG-TAATAGGCTTG
*
2119822 TACTTTAGTGGTGTTTGTGTTTACAAATGTCGTAATAGGCTTG
1 TACTTTAGTGGCGTTTGTGTTTACAAATGTCGTAATAGGCTTG
* *
2119865 TACTTTAGTGGCGTTTGTGTTTACAAATGCCGCAATAGGCTTG
1 TACTTTAGTGGCGTTTGTGTTTACAAATGTCGTAATAGGCTTG
2119908 TACTTTAGTGGCGTTT
1 TACTTTAGTGGCGTTT
2119924 TTGTACAAAC
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
41 15 0.16
42 2 0.02
43 74 0.81
ACGTcount: A:0.21, C:0.15, G:0.24, T:0.41
Consensus pattern (43 bp):
TACTTTAGTGGCGTTTGTGTTTACAAATGTCGTAATAGGCTTG
Found at i:2119945 original size:168 final size:165
Alignment explanation
Indices: 2119698--2119998 Score: 415
Period size: 168 Copynumber: 1.8 Consensus size: 165
2119688 CTATAGACTC
*
2119698 GTACTTCAGTGGCGTTTTTATACAAACGCCGCGATAGAGTAGTACTTTAGCGGCGTTTTTATACA
1 GTACTTCAGTGGCGTTTTTATACAAACGCCGCAATAGAGTAGTACTTTAGCGGCGTTTTTATACA
* * * *
2119763 AATGCCACTATAGACTCCTACTTTAGTGGCGTTTTTATACAAACGTCGCTATAGACTCGTACTTT
66 AACGCCACTATAGACTCCTACATTAGTGGCGTTTTTATACAAACGCCACTATAGACTCGT-CTTT
2119828 AGTGGTGTTTGTGTTTACAAATGTCGTAATAGGCTT
130 AGTGGTGTTTGTGTTTACAAATGTCGTAATAGGCTT
* * * * * *
2119864 GTACTTTAGTGGCGTTTGTGTTTACAAATGCCGCAATAG-GCTTGTACTTTAGTGGCGTTTTTGT
1 GTACTTCAGTGGCGTTT-T-TATACAAACGCCGCAATAGAG-TAGTACTTTAGCGGCGTTTTTAT
*** * *
2119928 ACAAACGTTGCTATAGACTCGTACATTAGTGGCGTTTTTATACAAACGCCACTATAGACTTGTCT
63 ACAAACGCCACTATAGACTCCTACATTAGTGGCGTTTTTATACAAACGCCACTATAGACTCGTCT
2119993 TTAGTG
128 TTAGTG
2119999 AGTTGCCTCT
Statistics
Matches: 116, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
166 16 0.14
167 10 0.09
168 90 0.78
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.37
Consensus pattern (165 bp):
GTACTTCAGTGGCGTTTTTATACAAACGCCGCAATAGAGTAGTACTTTAGCGGCGTTTTTATACA
AACGCCACTATAGACTCCTACATTAGTGGCGTTTTTATACAAACGCCACTATAGACTCGTCTTTA
GTGGTGTTTGTGTTTACAAATGTCGTAATAGGCTT
Found at i:2121282 original size:2 final size:2
Alignment explanation
Indices: 2121275--2121307 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2121265 CATGTGCAAT
2121275 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2121308 GTTTTATCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2123980 original size:43 final size:42
Alignment explanation
Indices: 2123870--2124085 Score: 231
Period size: 43 Copynumber: 5.1 Consensus size: 42
2123860 ATGGTAATTA
* *
2123870 GCGGCGTTTGTTCCAAAAACGCCGCTACAGATATGACCTTTT
1 GCGGCGTTTGTTCCAAAAACACCGCTACAGATTTGACCTTTT
* * * *
2123912 GCGGC-ATT-TTCCAAAAACGCCGCTACAAATCT-AGCCTTTT
1 GCGGCGTTTGTTCCAAAAACACCGCTACAGATTTGA-CCTTTT
*
2123952 GCGGCGTTTGTATCCAAAAACACTGCTACAGATTTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACACCGCTACAGATTTGACCTTTT
* * * *
2123995 GCGGCATTTGTCTACAAAAACACCACTATAGATTTGACCTTTT
1 GCGGCGTTTGT-TCCAAAAACACCGCTACAGATTTGACCTTTT
* ** * *
2124038 GCGGCGTTTGTTTCAAAAATGCCGCTATAGATCTTGACTTTTT
1 GCGGCGTTTGTTCCAAAAACACCGCTACAGAT-TTGACCTTTT
2124081 GCGGC
1 GCGGC
2124086 ATTTTTATTT
Statistics
Matches: 148, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 33 0.22
41 4 0.03
42 23 0.16
43 86 0.58
44 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAACACCGCTACAGATTTGACCTTTT
Found at i:2124075 original size:86 final size:82
Alignment explanation
Indices: 2123870--2124090 Score: 273
Period size: 86 Copynumber: 2.6 Consensus size: 82
2123860 ATGGTAATTA
* * *
2123870 GCGGCGTTTGTTCCAAAAACGCCGCTACAGATATGACCTTTTGCGGCATTTTCCAAAAACGCCGC
1 GCGGCGTTTGTTCCAAAAACGCCGCTACAGATTTGACCTTTTGCGGCATTTTCCAAAAACACCAC
2123935 TACAAATCTAGCCTTTT
66 TACAAATCTAGCCTTTT
* *
2123952 GCGGCGTTTGTATCCAAAAACACTGCTACAGATTTGACCTTTTGCGGCATTTGTCTACAAAAACA
1 GCGGCGTTTGT-TCCAAAAACGCCGCTACAGATTTGACCTTTTGCGGCATTT-TC--CAAAAACA
* * *
2124017 CCACTATAGAT-TTGACCTTTT
62 CCACTACAAATCTAG-CCTTTT
* * * *
2124038 GCGGCGTTTGTTTCAAAAATGCCGCTATAGATCTTGACTTTTTGCGGCATTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTACAGAT-TTGACCTTTTGCGGCATTTT
2124091 TATTTCACAA
Statistics
Matches: 119, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
82 11 0.09
83 37 0.31
84 2 0.02
85 19 0.16
86 50 0.42
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (82 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTACAGATTTGACCTTTTGCGGCATTTTCCAAAAACACCAC
TACAAATCTAGCCTTTT
Found at i:2124175 original size:21 final size:21
Alignment explanation
Indices: 2124149--2124209 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
2124139 TCTTGTGGCG
*
2124149 TTTTTACTATCGCCGCTAGCA
1 TTTTTACTATCGCCGCGAGCA
*
2124170 TTTTTACTATCGCCGCGAGCG
1 TTTTTACTATCGCCGCGAGCA
*
2124191 TTTTTACTATCGCCACGAG
1 TTTTTACTATCGCCGCGAG
2124210 TGCTTTTAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (21 bp):
TTTTTACTATCGCCGCGAGCA
Found at i:2124216 original size:21 final size:21
Alignment explanation
Indices: 2124150--2124217 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
2124140 CTTGTGGCGT
* * **
2124150 TTTTACTATCGCCGCTAGCAT
1 TTTTACTATCGCCACGAGCGC
* *
2124171 TTTTACTATCGCCGCGAGCGT
1 TTTTACTATCGCCACGAGCGC
*
2124192 TTTTACTATCGCCACGAGTGC
1 TTTTACTATCGCCACGAGCGC
2124213 TTTTA
1 TTTTA
2124218 GCGGCGCATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (21 bp):
TTTTACTATCGCCACGAGCGC
Found at i:2125780 original size:24 final size:23
Alignment explanation
Indices: 2125726--2125804 Score: 88
Period size: 23 Copynumber: 3.4 Consensus size: 23
2125716 TTGTACAAAC
* *
2125726 ATAGTTTTTCGGCTCTGGTAAAT
1 ATAGTTTTTCGACTCTGGTAAAA
* *
2125749 AGAGTTTTTCGACTATGGTAAAA
1 ATAGTTTTTCGACTCTGGTAAAA
*
2125772 ATAGTTTTTTTGACTCTGGTAAAA
1 ATAG-TTTTTCGACTCTGGTAAAA
2125796 A-AGGTTTTT
1 ATA-GTTTTT
2125805 TGATTTTGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
23 28 0.60
24 19 0.40
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (23 bp):
ATAGTTTTTCGACTCTGGTAAAA
Found at i:2125805 original size:24 final size:24
Alignment explanation
Indices: 2125726--2125805 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
2125716 TTGTACAAAC
* * *
2125726 ATAG-TTTTTCGGCTCTGGTAAAT
1 ATAGTTTTTTCGACTATGGTAAAA
*
2125749 AGAG-TTTTTCGACTATGGTAAAA
1 ATAGTTTTTTCGACTATGGTAAAA
* *
2125772 ATAGTTTTTTTGACTCTGGTAAAA
1 ATAGTTTTTTCGACTATGGTAAAA
2125796 A-AGGTTTTTT
1 ATA-GTTTTTT
2125806 GATTTTGAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 23 0.48
24 25 0.52
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.44
Consensus pattern (24 bp):
ATAGTTTTTTCGACTATGGTAAAA
Found at i:2130466 original size:15 final size:15
Alignment explanation
Indices: 2130443--2130472 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2130433 CCTACTCTGA
2130443 AATGGTTCTTGCATG
1 AATGGTTCTTGCATG
*
2130458 AATGTTTCTTGCATG
1 AATGGTTCTTGCATG
2130473 TGTAAATAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.43
Consensus pattern (15 bp):
AATGGTTCTTGCATG
Found at i:2140705 original size:17 final size:15
Alignment explanation
Indices: 2140683--2140718 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 15
2140673 AATTTTTAAG
2140683 AAAAAAATTAAGAAATT
1 AAAAAAATTAA-AAA-T
2140700 AAAAAAATTAAAAAT
1 AAAAAAATTAAAAAT
2140715 AAAA
1 AAAA
2140719 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 3 0.16
17 11 0.58
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAAAAATTAAAAAT
Found at i:2140783 original size:18 final size:19
Alignment explanation
Indices: 2140762--2140797 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2140752 AAAAACACTA
2140762 AAAATTTA-AAAATTAAAT
1 AAAATTTATAAAATTAAAT
2140780 AAAATTTATAAAATTAAA
1 AAAATTTATAAAATTAAA
2140798 AATAAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATTTATAAAATTAAAT
Found at i:2140823 original size:23 final size:23
Alignment explanation
Indices: 2140743--2140814 Score: 67
Period size: 23 Copynumber: 3.0 Consensus size: 23
2140733 CATAAAACTT
*
2140743 ATTAAAAATAAAAACA-CTA-AAA
1 ATTAAAAATAAAAA-AGTTATAAA
*
2140765 ATTTAAAAATTAAATAAAATTTATAAA
1 A-TTAAAAA-T-AA-AAAAGTTATAAA
2140792 ATTAAAAATAAAAAAGTTATAAA
1 ATTAAAAATAAAAAAGTTATAAA
2140815 TTGATAAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
22 1 0.02
23 18 0.43
24 3 0.07
25 4 0.10
26 12 0.29
27 4 0.10
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (23 bp):
ATTAAAAATAAAAAAGTTATAAA
Found at i:2141869 original size:16 final size:17
Alignment explanation
Indices: 2141840--2141872 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2141830 ATATCTAATC
*
2141840 ATTTTTATATGTAAAAT
1 ATTTTTATACGTAAAAT
2141857 ATTTTTA-ACGTAAAAT
1 ATTTTTATACGTAAAAT
2141873 GTATATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTTTTATACGTAAAAT
Found at i:2142617 original size:20 final size:20
Alignment explanation
Indices: 2142592--2142629 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2142582 ATTATTATTA
2142592 TTTTACTTATATATATATGC
1 TTTTACTTATATATATATGC
* *
2142612 TTTTACTTTTTTATATAT
1 TTTTACTTATATATATAT
2142630 TTTACTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTACTTATATATATATGC
Found at i:2142634 original size:17 final size:17
Alignment explanation
Indices: 2142612--2142659 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 17
2142602 ATATATATGC
2142612 TTTTACTTTTTTATATA
1 TTTTACTTTTTTATATA
2142629 TTTTACTCATTTATTTATATA
1 TTTTA--C-TTT-TTTATATA
2142650 TTTT-CTTTTT
1 TTTTACTTTTT
2142660 ATCTTTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
16 2 0.07
17 8 0.30
18 1 0.04
19 1 0.04
20 3 0.11
21 12 0.44
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTACTTTTTTATATA
Found at i:2142991 original size:21 final size:21
Alignment explanation
Indices: 2142931--2142988 Score: 98
Period size: 21 Copynumber: 2.7 Consensus size: 21
2142921 ACTATCACAA
2142931 TGCGATTTTCCAATTTCGCGT
1 TGCGATTTTCCAATTTCGCGT
*
2142952 TGCGATTTTCTAATTTCGCGT
1 TGCGATTTTCCAATTTCGCGT
2142973 TGCGATTTTCCCAATT
1 TGCGATTTT-CCAATT
2142989 CGCAATGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (21 bp):
TGCGATTTTCCAATTTCGCGT
Found at i:2142997 original size:21 final size:21
Alignment explanation
Indices: 2142928--2142998 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
2142918 ATCACTATCA
2142928 CAATGCGATTTTCCAATTTCG
1 CAATGCGATTTTCCAATTTCG
** *
2142949 CGTTGCGATTTTCTAATTTCG
1 CAATGCGATTTTCCAATTTCG
**
2142970 CGTTGCGATTTTCCCAA-TTCG
1 CAATGCGATTTT-CCAATTTCG
2142991 CAATGCGA
1 CAATGCGA
2142999 ATAAGTAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 40 0.93
22 3 0.07
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (21 bp):
CAATGCGATTTTCCAATTTCG
Found at i:2143084 original size:20 final size:20
Alignment explanation
Indices: 2143059--2143131 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
2143049 TAATACAAAA
2143059 TCGCAACGCGATATTGACTT
1 TCGCAACGCGATATTGACTT
2143079 TCGCAACGCGATACTT-ACTT
1 TCGCAACGCGATA-TTGACTT
* *
2143099 TCGCAACGTGATACTGACTT
1 TCGCAACGCGATATTGACTT
*
2143119 TCGCAACGAGATA
1 TCGCAACGCGATA
2143132 ATACATAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.94
21 2 0.04
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATATTGACTT
Found at i:2143117 original size:40 final size:40
Alignment explanation
Indices: 2143028--2143151 Score: 142
Period size: 41 Copynumber: 3.0 Consensus size: 40
2143018 AATTGGGAAA
*
2143028 ATACTGACTATCGCAACGCGATAATACAAAATCGCAACGCG
1 ATACTGACTTTCGCAACGCGATAATAC-AAATCGCAACGCG
* * ** *
2143069 ATATTGACTTTCGCAACGCGATACTTAC-TTTCGCAACGTG
1 ATACTGACTTTCGCAACGCGATA-ATACAAATCGCAACGCG
* *
2143109 ATACTGACTTTCGCAACGAGATAATACATAATCGCAATGCG
1 ATACTGACTTTCGCAACGCGATAATACA-AATCGCAACGCG
2143150 AT
1 AT
2143152 TTTCAAAGCG
Statistics
Matches: 67, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
39 3 0.04
40 30 0.45
41 31 0.46
42 3 0.04
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (40 bp):
ATACTGACTTTCGCAACGCGATAATACAAATCGCAACGCG
Found at i:2143346 original size:22 final size:22
Alignment explanation
Indices: 2143318--2143361 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2143308 CACTCTCTCA
2143318 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
2143340 CCCATCTCCTACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2143362 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.45, G:0.11, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2143677 original size:20 final size:20
Alignment explanation
Indices: 2143623--2143681 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
2143613 TTTATTCTCT
**
2143623 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
2143643 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
2143663 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
2143682 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:2144974 original size:18 final size:18
Alignment explanation
Indices: 2144953--2145000 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
2144943 TCCACTTTGG
*
2144953 GAGCCATCACCTTACCCA
1 GAGCCATCACCTCACCCA
*
2144971 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
2144989 GAGCCATCACCT
1 GAGCCATCACCT
2145001 GATCGACCCG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.44, G:0.12, T:0.17
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2145589 original size:19 final size:20
Alignment explanation
Indices: 2145535--2145601 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
2145525 TAGTTTACTT
* *
2145535 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
2145555 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
2145575 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
2145594 TCGCAACG
1 TCGCAACG
2145602 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:2145609 original size:14 final size:14
Alignment explanation
Indices: 2145590--2145648 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
2145580 ATGCGAAATG
2145590 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2145604 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
2145623 AAAATCGCAACGAC
1 AAAATCGCAACGAC
2145637 AAAATCGCAACG
1 AAAATCGCAACG
2145649 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2145616 original size:33 final size:33
Alignment explanation
Indices: 2145574--2145664 Score: 173
Period size: 33 Copynumber: 2.8 Consensus size: 33
2145564 GGAAATGGCT
2145574 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
2145607 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
2145640 ATCGCAACGCGAAATGAAAATCGCA
1 ATCGCAATGCGAAATGAAAATCGCA
2145665 TTTCGCATTG
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:2145628 original size:19 final size:18
Alignment explanation
Indices: 2145574--2145664 Score: 81
Period size: 19 Copynumber: 5.3 Consensus size: 18
2145564 GGAAATGGCT
2145574 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
2145593 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
2145607 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
2145626 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
2145640 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
2145659 ATCGCA
1 ATCGCA
2145665 TTTCGCATTG
Statistics
Matches: 58, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 20 0.34
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 26 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:2145704 original size:19 final size:19
Alignment explanation
Indices: 2145663--2145734 Score: 90
Period size: 20 Copynumber: 3.7 Consensus size: 19
2145653 ATGAAAATCG
* **
2145663 CATTTCGCATTGCGATTTT
1 CATTTCGCGTTGCGATAGT
*
2145682 CATTTCGCGTTGCGATAGC
1 CATTTCGCGTTGCGATAGT
2145701 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGT
2145721 CATTTTCGCGTTGC
1 CA-TTTCGCGTTGC
2145735 AAAAGTAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
19 20 0.43
20 23 0.50
21 3 0.07
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.39
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGT
Found at i:2145747 original size:20 final size:20
Alignment explanation
Indices: 2145724--2145762 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2145714 CGATAGTCAT
2145724 TTTCGCGTTGCAAAAGTAAG
1 TTTCGCGTTGCAAAAGTAAG
* *
2145744 TTTCGTGTTGCGAAAGTAA
1 TTTCGCGTTGCAAAAGTAA
2145763 ACTATTATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (20 bp):
TTTCGCGTTGCAAAAGTAAG
Found at i:2146153 original size:21 final size:20
Alignment explanation
Indices: 2146101--2146161 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
2146091 GACTCACCTG
2146101 TCATCCCTCAAGAGTCCCCT
1 TCATCCCTCAAGAGTCCCCT
* ** *
2146121 CCAATCATTCAAGAGGCCCCT
1 TC-ATCCCTCAAGAGTCCCCT
2146142 ATCATCCCTCAAGAGTCCCC
1 -TCATCCCTCAAGAGTCCCC
2146162 CCCACCGTTC
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.25, C:0.43, G:0.11, T:0.21
Consensus pattern (20 bp):
TCATCCCTCAAGAGTCCCCT
Found at i:2146185 original size:41 final size:42
Alignment explanation
Indices: 2146101--2146188 Score: 124
Period size: 41 Copynumber: 2.1 Consensus size: 42
2146091 GACTCACCTG
* *
2146101 TCATCCCTCAAGAGTCCCCTCCAATCATTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCCACTA
* * *
2146143 TCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCTACTA
1 TCATCCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCCACTA
2146184 TCATC
1 TCATC
2146189 GTTGAAGAGG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 22 0.54
42 19 0.46
ACGTcount: A:0.25, C:0.41, G:0.12, T:0.22
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCCCTCCAACCATTCAAGAGGCCACTA
Found at i:2146197 original size:41 final size:41
Alignment explanation
Indices: 2146101--2146218 Score: 128
Period size: 42 Copynumber: 2.8 Consensus size: 41
2146091 GACTCACCTG
* * *
2146101 TCATCCCTCAAGAGTCCCCTCCAATCATTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CCCACCATTCAAGAGGCCACTA
* *
2146143 TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCTACTA
1 TCATCCCTCAAGAGTCCCCCCCACCATTCAAGAGGCCACTA
** * * *
2146184 TCATCGTTGAAGAGGTCCCTCCCACCATTCCAGAG
1 TCATCCCTCAAGA-GTCCCCCCCACCATTCAAGAG
2146219 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 27 0.42
42 37 0.58
ACGTcount: A:0.25, C:0.39, G:0.15, T:0.21
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCCCCCACCATTCAAGAGGCCACTA
Found at i:2147633 original size:14 final size:14
Alignment explanation
Indices: 2147599--2147637 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2147589 TTGATTGTTT
2147599 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
2147613 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
2147627 TGTTGATTTGT
1 AATTGATTTGT
2147638 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:2147801 original size:19 final size:19
Alignment explanation
Indices: 2147777--2147841 Score: 95
Period size: 19 Copynumber: 3.7 Consensus size: 19
2147767 GGAATGAGAG
2147777 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2147796 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2147815 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
2147829 AATCGCAATGCGA
1 AATCGCAATGCGA
2147842 TTTTCATTTC
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
14 11 0.26
15 1 0.02
16 2 0.05
17 2 0.05
19 27 0.63
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2147877 original size:20 final size:20
Alignment explanation
Indices: 2147848--2147941 Score: 152
Period size: 20 Copynumber: 4.7 Consensus size: 20
2147838 GCGATTTTCA
*
2147848 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
* *
2147868 TTTTGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
2147888 TTTCGCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
2147908 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGCCAT
2147928 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
2147942 TTCCCCGTTG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.38
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:2150240 original size:12 final size:12
Alignment explanation
Indices: 2150223--2150247 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2150213 TCTTCGGGGA
2150223 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2150235 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2150247 C
1 C
2150248 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2150456 original size:24 final size:24
Alignment explanation
Indices: 2150422--2150475 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2150412 CTGAAACATC
*
2150422 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
2150446 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2150470 ATCAAA
1 ATCAAA
2150476 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2151242 original size:20 final size:20
Alignment explanation
Indices: 2151221--2151328 Score: 171
Period size: 20 Copynumber: 5.4 Consensus size: 20
2151211 TGTATTATCT
* *
2151221 CGTTGCGATAGTCAGAATCT
1 CGTTGCGAAAGTCAGAATCG
2151241 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
*
2151261 CGTTGCAAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
*
2151281 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGAATCG
*
2151301 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGAATCG
2151321 CGTTGCGA
1 CGTTGCGA
2151329 TTTTGTATTA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:2151355 original size:41 final size:41
Alignment explanation
Indices: 2151296--2151373 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
2151286 CGAAAGTCAG
* *
2151296 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTAT
*
2151337 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
2151374 CCAAATTCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTAT
Found at i:2151370 original size:20 final size:20
Alignment explanation
Indices: 2151216--2151369 Score: 166
Period size: 20 Copynumber: 7.7 Consensus size: 20
2151206 GATTCTGTAT
* *
2151216 TATCTCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
2151236 AATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
2151256 AATCGCGTTGCAAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2151276 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
2151296 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
** *
2151316 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
2151337 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2151357 TATCGCATTGCGA
1 TATCGCGTTGCGA
2151370 TTTTCCAAAT
Statistics
Matches: 119, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
19 3 0.03
20 101 0.85
21 13 0.11
22 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.29
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:2151384 original size:41 final size:41
Alignment explanation
Indices: 2151296--2151391 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 41
2151286 CGAAAGTCAG
* * * ** *
2151296 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCAAA
2151337 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAA
1 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT-CAAA
2151379 T-TCGCATTGCGAT
1 TATCGCATTGCGAT
2151392 TTACTTATTC
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 46 0.96
42 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (41 bp):
TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCAAA
Found at i:2151452 original size:21 final size:20
Alignment explanation
Indices: 2151404--2151481 Score: 68
Period size: 21 Copynumber: 3.8 Consensus size: 20
2151394 ACTTATTCGT
2151404 ATTGCGAATTGGGAAAATCGC
1 ATTGCGAATT-GGAAAATCGC
**
2151425 AACGCGAAATTGGAAAATCGC
1 ATTGCG-AATTGGAAAATCGC
* * *
2151446 ATTGCGATAAT-CATAATCGC
1 ATTGCGA-ATTGGAAAATCGC
2151466 ATTGCGAATCTGGAAA
1 ATTGCGAAT-TGGAAA
2151482 CTGATTTGTA
Statistics
Matches: 43, Mismatches: 10, Indels: 8
0.70 0.16 0.13
Matches are distributed among these distances:
19 1 0.02
20 16 0.37
21 22 0.51
22 4 0.09
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (20 bp):
ATTGCGAATTGGAAAATCGC
Found at i:2156204 original size:25 final size:25
Alignment explanation
Indices: 2156176--2156234 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
2156166 AATCAAAAAC
2156176 AAAGAAAAAAGAGAAA-C-AAAAGAAA
1 AAAGAAAAAAGA-AAATCAAAAAG-AA
* *
2156201 AAAGAAAGAATAAAATCAAAAAGAA
1 AAAGAAAAAAGAAAATCAAAAAGAA
2156226 AAAGAAAAA
1 AAAGAAAAA
2156235 GGGACAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 3 0.10
25 21 0.72
26 5 0.17
ACGTcount: A:0.80, C:0.03, G:0.14, T:0.03
Consensus pattern (25 bp):
AAAGAAAAAAGAAAATCAAAAAGAA
Found at i:2156215 original size:19 final size:18
Alignment explanation
Indices: 2156170--2156233 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
2156160 AGATCCAATC
2156170 AAAAAC-AAAGAAAAAAG
1 AAAAACAAAAGAAAAAAG
*
2156187 AGAAACAAAAGAAAAAAG
1 AAAAACAAAAGAAAAAAG
* **
2156205 AAAGAATAAAATCAAAAAG
1 AAA-AACAAAAGAAAAAAG
*
2156224 AAAAAGAAAA
1 AAAAACAAAA
2156234 AGGGACAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
17 5 0.13
18 19 0.49
19 15 0.38
ACGTcount: A:0.80, C:0.05, G:0.12, T:0.03
Consensus pattern (18 bp):
AAAAACAAAAGAAAAAAG
Found at i:2156863 original size:22 final size:22
Alignment explanation
Indices: 2156835--2156911 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
2156825 GCTACCCCAT
2156835 CAAACCTTTGAGCATCAAATGA
1 CAAACCTTTGAGCATCAAATGA
*
2156857 CAAACCTTTGAACATCAAAT-A
1 CAAACCTTTGAGCATCAAATGA
* *
2156878 CCAAACATTTGAGCATCAAATGC
1 -CAAACCTTTGAGCATCAAATGA
2156901 CAAACCTTTGA
1 CAAACCTTTGA
2156912 CCAAACACAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 1 0.02
22 47 0.98
ACGTcount: A:0.42, C:0.25, G:0.10, T:0.23
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGA
Found at i:2157699 original size:37 final size:35
Alignment explanation
Indices: 2157656--2157789 Score: 135
Period size: 37 Copynumber: 3.7 Consensus size: 35
2157646 TTTCCAATAT
* * *
2157656 AAATTTTGTCTCGCTTGAGACAGTCTCATTTAAAAC
1 AAATTTTATCTCCCTTGAGACAGTCTC-TTTGAAAC
** * *
2157692 AAGATTTTATCTTGCTTGAGATAGTTTTTCTTTGAAAC
1 AA-ATTTTATCTCCCTTGAGACAG--TCTCTTTGAAAC
*
2157730 AAATTTCT-TCTCCCTTGAGACAGTCTTCCTTGAAAC
1 AAATTT-TATCTCCCTTGAGACAGTC-TCTTTGAAAC
2157766 AAATTTTATCTCCCTTGAGACAGT
1 AAATTTTATCTCCCTTGAGACAGT
2157790 TTCTCTCCAG
Statistics
Matches: 82, Mismatches: 10, Indels: 12
0.79 0.10 0.12
Matches are distributed among these distances:
35 2 0.02
36 33 0.40
37 34 0.41
38 10 0.12
39 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (35 bp):
AAATTTTATCTCCCTTGAGACAGTCTCTTTGAAAC
Found at i:2157983 original size:106 final size:106
Alignment explanation
Indices: 2157794--2159261 Score: 2281
Period size: 106 Copynumber: 13.8 Consensus size: 106
2157784 GACAGTTTCT
* * *
2157794 CTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
2157859 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* *** * * * *** *
2157900 CTCAAGACAGTACAAGCTCAACTTCAC-AGCGAAGGGGCGGCTGACAGTCAACAAACAACTTCTC
1 CTCCAGACAACGCAAGTTCAACTTCACGA-CGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2157964 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* *
2158006 CTCGAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
2158071 ATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
*
2158112 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
2158177 ATTTCGGAGCTAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * * *
2158218 CTCCGGACAATGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
2158283 ATTTCAGAGCCAATTTCAACTTCACAACGAAAGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
*
2158324 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
*
2158389 ATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
*
2158430 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
2158495 ATTTCAGAGCCAATTTCAACTTCACAGCGAAAGATATTAGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
*
2158536 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
2158601 ATTTCGGAGCCAATTTCAACTTCACAACGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * *
2158642 CTTCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* * *
2158707 ATTTCAGAGCCAATTTTAACTTCACAACGAAAGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* *
2158748 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
2158813 ATTTCGGAGCCAATTTTAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * *
2158854 CTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACTGCTGGTTGTCAATAAACAACTTCTCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
* *
2158919 ATTTCAGAGCCAATTTCAACTTCACAACGAATGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * *
2158960 CTCTAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGTTGGTTGTCAACAAACAACTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
2159025 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * * ** * *
2159066 CTCGAGACGATGCAAGTTCAACTTTAAAACAAAGGGACCGCTGGTTGTCAACAAACAATTTCCCA
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
*
2159131 ATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
66 ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* * * * * *
2159172 CTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCG
1 CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
*
2159237 ATTCCAGAGCCAATTTCAACTTCAC
66 ATTTCAGAGCCAATTTCAACTTCAC
2159262 GACGGAAATA
Statistics
Matches: 1247, Mismatches: 113, Indels: 4
0.91 0.08 0.00
Matches are distributed among these distances:
105 1 0.00
106 1245 1.00
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
CTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
Found at i:2160604 original size:20 final size:20
Alignment explanation
Indices: 2160579--2160616 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2160569 TTTATTATTA
2160579 TTTTACTTATATATATATGC
1 TTTTACTTATATATATATGC
* *
2160599 TTTTACTTTTTTATATAT
1 TTTTACTTATATATATAT
2160617 TTTACTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTACTTATATATATATGC
Found at i:2160645 original size:37 final size:35
Alignment explanation
Indices: 2160563--2160646 Score: 87
Period size: 37 Copynumber: 2.3 Consensus size: 35
2160553 TTGATTTTCT
* * * *
2160563 TTTTTATTTATTATTATTTTACTTATATATATATGC
1 TTTTTCTTTTTTATTATTTTACTCATATATTTAT-C
* *
2160599 TTTTACTTTTTTATATATTTTACTCATTTATTTATC
1 TTTTTCTTTTTTAT-TATTTTACTCATATATTTATC
2160635 TATTTTCTTTTT
1 T-TTTTCTTTTT
2160647 ATCTTTATCC
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
36 13 0.33
37 26 0.67
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.68
Consensus pattern (35 bp):
TTTTTCTTTTTTATTATTTTACTCATATATTTATC
Found at i:2164465 original size:17 final size:18
Alignment explanation
Indices: 2164443--2164482 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
2164433 AATATATTTA
*
2164443 TTTAATT-TTTATTTGTT
1 TTTAATTATTTATTTATT
*
2164460 TTTAATTATTTTTTTATT
1 TTTAATTATTTATTTATT
2164478 TTTAA
1 TTTAA
2164483 ACATTTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (18 bp):
TTTAATTATTTATTTATT
Found at i:2165104 original size:15 final size:16
Alignment explanation
Indices: 2165079--2165108 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2165069 GCTCGTTGAC
2165079 AAATAATTAAAAATCA
1 AAATAATTAAAAATCA
2165095 AAATAA-TAAAAATC
1 AAATAATTAAAAATC
2165109 TTTCTTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAATTAAAAATCA
Found at i:2165728 original size:20 final size:20
Alignment explanation
Indices: 2165675--2165733 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
2165665 TAGTGTTTTT
*
2165675 CACATTTAAAA-AGCTTTAAA
1 CACATTTAAAATA-TTTTAAA
*
2165695 CACATTTTAAATATTTTAAA
1 CACATTTAAAATATTTTAAA
2165715 CAC-TTTAAACATATTTTAA
1 CACATTTAAA-ATATTTTAA
2165734 TTAACTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.15
20 28 0.82
21 1 0.03
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.39
Consensus pattern (20 bp):
CACATTTAAAATATTTTAAA
Found at i:2173754 original size:25 final size:25
Alignment explanation
Indices: 2173726--2173778 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
2173716 ACTCTTCCAA
* *
2173726 TACTGATTTACAATACAAACTTCGG
1 TACTGATTTACAAAACAAACTTAGG
2173751 TACTGATTTACAAAACAAACTTAGG
1 TACTGATTTACAAAACAAACTTAGG
2173776 TAC
1 TAC
2173779 ACTTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (25 bp):
TACTGATTTACAAAACAAACTTAGG
Found at i:2178474 original size:14 final size:13
Alignment explanation
Indices: 2178442--2178474 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
2178432 TTCTTTGATG
2178442 ACATC-CTAGTTT
1 ACATCTCTAGTTT
2178454 ACATCTCTAGTTT
1 ACATCTCTAGTTT
2178467 AGCATCTC
1 A-CATCTC
2178475 ATGAATAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 8 0.42
14 6 0.32
ACGTcount: A:0.24, C:0.27, G:0.09, T:0.39
Consensus pattern (13 bp):
ACATCTCTAGTTT
Found at i:2180779 original size:24 final size:24
Alignment explanation
Indices: 2180752--2180860 Score: 101
Period size: 24 Copynumber: 4.5 Consensus size: 24
2180742 GTAAACGGAG
2180752 ATATCAGAAATCAAAACATAATTC
1 ATATCAGAAATCAAAACATAATTC
* * *
2180776 ATATCAGATATCAGAACATAATCC
1 ATATCAGAAATCAAAACATAATTC
** * * * * *
2180800 AGGTTAGGAATCAGAACAGATTTC
1 ATATCAGAAATCAAAACATAATTC
**
2180824 ATATCAGATGTCAAAACATAATTC
1 ATATCAGAAATCAAAACATAATTC
*
2180848 AAATCAGAAATCA
1 ATATCAGAAATCA
2180861 GATAAAATAT
Statistics
Matches: 62, Mismatches: 23, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.25
Consensus pattern (24 bp):
ATATCAGAAATCAAAACATAATTC
Found at i:2180860 original size:48 final size:48
Alignment explanation
Indices: 2180754--2180862 Score: 128
Period size: 48 Copynumber: 2.3 Consensus size: 48
2180744 AAACGGAGAT
* * * *
2180754 ATCAGAAATCAAAACATAATTCATATCAGATATCAGAACATAATCCAG
1 ATCAGAAATCAGAACAGAATTCATATCAGATATCAAAACATAATCCAA
* * * * * *
2180802 GTTAGGAATCAGAACAGATTTCATATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCATATCAGATATCAAAACATAATCCAA
2180850 ATCAGAAATCAGA
1 ATCAGAAATCAGA
2180863 TAAAATATTC
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.24
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCATATCAGATATCAAAACATAATCCAA
Found at i:2183414 original size:13 final size:13
Alignment explanation
Indices: 2183396--2183422 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2183386 TGTGGTCAAT
2183396 GGGTCAACGAGTC
1 GGGTCAACGAGTC
2183409 GGGTCAACGAGTC
1 GGGTCAACGAGTC
2183422 G
1 G
2183423 AGTCGGGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.41, T:0.15
Consensus pattern (13 bp):
GGGTCAACGAGTC
Found at i:2185514 original size:24 final size:24
Alignment explanation
Indices: 2185487--2185532 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
2185477 GTAAACGGAG
2185487 ATATCATAA-ATCAAAACATAATTC
1 ATATCA-AATATCAAAACATAATTC
*
2185511 ATATCAAATATCAGAACATAAT
1 ATATCAAATATCAAAACATAAT
2185533 CCAGGTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.54, C:0.15, G:0.02, T:0.28
Consensus pattern (24 bp):
ATATCAAATATCAAAACATAATTC
Found at i:2188162 original size:13 final size:13
Alignment explanation
Indices: 2188131--2188184 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 13
2188121 CTGTGGTCAA
*
2188131 CGGGTCAACGACT
1 CGGGTCAACGAGT
*
2188144 CTGGTCAACGAGT
1 CGGGTCAACGAGT
*
2188157 CGGGT---CGGGT
1 CGGGTCAACGAGT
*
2188167 CGGGTCAACGGGT
1 CGGGTCAACGAGT
2188180 CGGGT
1 CGGGT
2188185 TTGGAACCGG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 9 0.26
13 25 0.74
ACGTcount: A:0.15, C:0.24, G:0.43, T:0.19
Consensus pattern (13 bp):
CGGGTCAACGAGT
Done.